HL_8K2D_032

3D structure

PDB id

8K2D (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM structure of the yeast 80S ribosome with tigecycline, eEF2, Stm1 and eIF5A

Experimental method

ELECTRON MICROSCOPY

Resolution

3.2 Å

Loop

Sequence

AGCAGUU

Length

7 nucleotides

Bulged bases

8K2D|1|C1|G|1507, 8K2D|1|C1|U|1511

QA status

Valid loop

Sequence variability

If this chain is mapped to an Rfam alignment, the link below will give its sequence variability.

R3DSVS

Structural variability across Equivalence Class

The link below will give the loop's structural variability across the equivalence class for this chain.

R3DMCS EC

Structural variability across Rfam

If this chain is mapped to an Rfam alignment, the link below will give the loop's structural variability between chains mapped to the same Rfam family.

R3DMCS Rfam

HL_8K2D_032 not in the Motif Atlas

Homologous match to HL_5TBW_032

Geometric discrepancy: 0.0957

The information below is about HL_5TBW_032

Detailed Annotation

Pseudoknot geometry with 3' bulge

Broad Annotation

No text annotation

Motif group

HL_40756.1

Basepair signature

cWW-F-F-F

Number of instances in this motif group

14

Unit IDs

8K2D|1|C1|A|1506
8K2D|1|C1|G|1507
8K2D|1|C1|C|1508
8K2D|1|C1|A|1509
8K2D|1|C1|G|1510
8K2D|1|C1|U|1511
8K2D|1|C1|U|1512

Current chains

Chain C1

23S rRNA

Nearby chains

Chain LP

Large ribosomal subunit protein uL22A

Chain LR

Large ribosomal subunit protein eL19A

Chain Ll

Large ribosomal subunit protein eL39